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ChIP-seq profiling of the active chromatin marker H3K4me3 and PPAR?, CEBP? and LXR target genes in human SGBS adipocytes.

ABSTRACT: Transcription factors (TFs) represent key factors to establish a cellular phenotype. It is known that several TFs could play a role in disease, yet less is known so far how their targets overlap. We focused here on identifying the most highly induced TFs and their putative targets during human adipogenesis. Applying chromatin immunoprecipitation coupled with deep sequencing (ChIP-Seq) in the human SGBS pre-adipocyte cell line, we identified genes with binding sites in their vicinity for the three TFs studied, PPAR?, CEBP? and LXR. Here we describe the experimental design and quality controls in detail for the deep sequencing data and related results published by Galhardo et al. in Nucleic Acids Research 2014 [1] associated with the data uploaded to NCBI Gene Expression Omnibus (GSE41578).

SUBMITTER: Galhardo M

PROVIDER: S-EPMC4536030 | biostudies-literature | 2014 Dec

REPOSITORIES: biostudies-literature

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ChIP-seq profiling of the active chromatin marker H3K4me3 and PPARγ, CEBPα and LXR target genes in human SGBS adipocytes.

Galhardo Mafalda M Sinkkonen Lasse L Berninger Philipp P Lin Jake J Sauter Thomas T Heinäniemi Merja M

Genomics data 20140806

Transcription factors (TFs) represent key factors to establish a cellular phenotype. It is known that several TFs could play a role in disease, yet less is known so far how their targets overlap. We focused here on identifying the most highly induced TFs and their putative targets during human adipogenesis. Applying chromatin immunoprecipitation coupled with deep sequencing (ChIP-Seq) in the human SGBS pre-adipocyte cell line, we identified genes with binding sites in their vicinity for the thre ...[more]

PMID: 26484099

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